sbuild (Debian sbuild) 0.73.0 (23 Dec 2016) on gcc131.bak.milne.osuosl.org +==============================================================================+ | berkeley-express 1.5.2+dfsg-1 (arm64) Thu, 30 May 2019 17:24:48 +0000 | +==============================================================================+ Package: berkeley-express Version: 1.5.2+dfsg-1 Source Version: 1.5.2+dfsg-1 Distribution: unstable Machine Architecture: amd64 Host Architecture: arm64 Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/unstable-amd64-sbuild-bb6e93f4-20c0-46d6-99cf-94c3921d1a8f' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 http://debian.oregonstate.edu/debian unstable InRelease [247 kB] Get:2 http://debian.oregonstate.edu/debian unstable/main Sources.diff/Index [27.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 Packages.diff/Index [27.9 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2019-05-30-0819.31.pdiff [1341 B] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-05-30-0819.31.pdiff [466 B] Get:4 http://debian.oregonstate.edu/debian unstable/main Sources 2019-05-30-0819.31.pdiff [1341 B] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 Packages 2019-05-30-0819.31.pdiff [466 B] Get:6 http://debian.oregonstate.edu/debian unstable/main arm64 Packages [8120 kB] Fetched 8425 kB in 2s (4266 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Check APT --------- Checking available source versions... Download source files with APT ------------------------------ Reading package lists... NOTICE: 'berkeley-express' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/berkeley-express.git Please use: git clone https://salsa.debian.org/med-team/berkeley-express.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 377 kB of source archives. Get:1 http://debian.oregonstate.edu/debian unstable/main berkeley-express 1.5.2+dfsg-1 (dsc) [2426 B] Get:2 http://debian.oregonstate.edu/debian unstable/main berkeley-express 1.5.2+dfsg-1 (tar) [366 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main berkeley-express 1.5.2+dfsg-1 (diff) [8904 B] Fetched 377 kB in 0s (7820 kB/s) Download complete and in download only mode I: NOTICE: Log filtering will replace 'build/berkeley-express-wrxTkG/berkeley-express-1.5.2+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/berkeley-express-wrxTkG' with '<>' +------------------------------------------------------------------------------+ | Install crossbuild-essential | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: build-essential:amd64, fakeroot:amd64, crossbuild-essential-arm64:amd64 Filtered Build-Depends: build-essential:amd64, fakeroot:amd64, crossbuild-essential-arm64:amd64 dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-ChwG4U/apt_archive/sbuild-build-depends-core-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy dpkg-scanpackages: info: Wrote 1 entries to output Packages file. Ign:1 copy:/<>/resolver-ChwG4U/apt_archive ./ InRelease Get:2 copy:/<>/resolver-ChwG4U/apt_archive ./ Release [957 B] Ign:3 copy:/<>/resolver-ChwG4U/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-ChwG4U/apt_archive ./ Sources [362 B] Get:5 copy:/<>/resolver-ChwG4U/apt_archive ./ Packages [451 B] Fetched 1770 B in 0s (80.9 kB/s) Reading package lists... Reading package lists... Install core build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: binutils-aarch64-linux-gnu cpp-8-aarch64-linux-gnu cpp-aarch64-linux-gnu cross-config crossbuild-essential-arm64 dpkg-cross file g++-8-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-8-aarch64-linux-gnu gcc-8-aarch64-linux-gnu-base gcc-8-cross-base gcc-aarch64-linux-gnu libasan5-arm64-cross libatomic1-arm64-cross libc6-arm64-cross libc6-dev-arm64-cross libconfig-auto-perl libconfig-inifiles-perl libdebian-dpkgcross-perl libfile-homedir-perl libfile-which-perl libgcc-8-dev-arm64-cross libgcc1-arm64-cross libgomp1-arm64-cross libicu63 libio-string-perl libitm1-arm64-cross liblocale-gettext-perl liblsan0-arm64-cross libmagic-mgc libmagic1 libstdc++-8-dev-arm64-cross libstdc++6-arm64-cross libtsan0-arm64-cross libubsan1-arm64-cross libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev-arm64-cross sensible-utils ucf Suggested packages: binutils-doc gcc-8-locales cpp-doc binutils-multiarch gcc-8-doc libstdc++6-8-dbg-arm64-cross libgcc1-dbg-arm64-cross libgomp1-dbg-arm64-cross libitm1-dbg-arm64-cross libatomic1-dbg-arm64-cross libasan5-dbg-arm64-cross liblsan0-dbg-arm64-cross libtsan0-dbg-arm64-cross libubsan1-dbg-arm64-cross libmpx2-dbg-arm64-cross libquadmath0-dbg-arm64-cross manpages-dev autoconf automake libtool flex bison gdb-aarch64-linux-gnu gcc-doc libyaml-shell-perl Recommended packages: libwww-perl libxml-sax-expat-perl libyaml-libyaml-perl | libyaml-syck-perl The following NEW packages will be installed: binutils-aarch64-linux-gnu cpp-8-aarch64-linux-gnu cpp-aarch64-linux-gnu cross-config crossbuild-essential-arm64 dpkg-cross file g++-8-aarch64-linux-gnu g++-aarch64-linux-gnu gcc-8-aarch64-linux-gnu gcc-8-aarch64-linux-gnu-base gcc-8-cross-base gcc-aarch64-linux-gnu libasan5-arm64-cross libatomic1-arm64-cross libc6-arm64-cross libc6-dev-arm64-cross libconfig-auto-perl libconfig-inifiles-perl libdebian-dpkgcross-perl libfile-homedir-perl libfile-which-perl libgcc-8-dev-arm64-cross libgcc1-arm64-cross libgomp1-arm64-cross libicu63 libio-string-perl libitm1-arm64-cross liblocale-gettext-perl liblsan0-arm64-cross libmagic-mgc libmagic1 libstdc++-8-dev-arm64-cross libstdc++6-arm64-cross libtsan0-arm64-cross libubsan1-arm64-cross libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libyaml-perl linux-libc-dev-arm64-cross sbuild-build-depends-core-dummy:arm64 sensible-utils ucf 0 upgraded, 47 newly installed, 0 to remove and 0 not upgraded. Need to get 41.8 MB of archives. After this operation, 161 MB of additional disk space will be used. Get:1 copy:/<>/resolver-ChwG4U/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [872 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 liblocale-gettext-perl amd64 1.07-3+b4 [18.9 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 sensible-utils all 0.0.12 [15.8 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic-mgc amd64 1:5.35-4 [242 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libmagic1 amd64 1:5.35-4 [117 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 file amd64 1:5.35-4 [66.3 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 ucf all 3.0038+nmu1 [69.0 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 binutils-aarch64-linux-gnu amd64 2.31.1-16 [2905 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-8-aarch64-linux-gnu-base amd64 8.3.0-7cross1 [191 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-8-aarch64-linux-gnu amd64 8.3.0-7cross1 [6241 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 cpp-aarch64-linux-gnu amd64 4:8.3.0-1 [16.5 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 cross-config all 2.6.15-3 [39.9 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-8-cross-base all 8.3.0-7cross1 [186 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-arm64-cross all 2.28-10cross2 [1312 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc1-arm64-cross all 1:8.3.0-7cross1 [34.4 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libgomp1-arm64-cross all 8.3.0-7cross1 [66.2 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libitm1-arm64-cross all 8.3.0-7cross1 [23.6 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libatomic1-arm64-cross all 8.3.0-7cross1 [8624 B] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++6-arm64-cross all 8.3.0-7cross1 [325 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libasan5-arm64-cross all 8.3.0-7cross1 [322 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 liblsan0-arm64-cross all 8.3.0-7cross1 [117 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libtsan0-arm64-cross all 8.3.0-7cross1 [255 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libubsan1-arm64-cross all 8.3.0-7cross1 [110 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libgcc-8-dev-arm64-cross all 8.3.0-7cross1 [835 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-8-aarch64-linux-gnu amd64 8.3.0-7cross1 [6677 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 gcc-aarch64-linux-gnu amd64 4:8.3.0-1 [1456 B] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 linux-libc-dev-arm64-cross all 4.19.28-2cross2 [1225 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libc6-dev-arm64-cross all 2.28-10cross2 [2323 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libstdc++-8-dev-arm64-cross all 8.3.0-7cross1 [1484 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 g++-8-aarch64-linux-gnu amd64 8.3.0-7cross1 [6813 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 g++-aarch64-linux-gnu amd64 4:8.3.0-1 [1176 B] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-inifiles-perl all 3.000001-1 [51.9 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libio-string-perl all 1.08-3 [12.3 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libicu63 amd64 63.1-6 [8292 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libxml2 amd64 2.9.4+dfsg1-7+b3 [687 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-namespacesupport-perl all 1.12-1 [14.8 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-base-perl all 1.09-1 [20.4 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-sax-perl all 1.00+dfsg-1 [58.6 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-1 [344 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-perl all 1.27-1 [66.8 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libconfig-auto-perl all 0.44-1 [19.5 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-which-perl all 1.23-1 [16.6 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-homedir-perl all 1.004-1 [42.7 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 libdebian-dpkgcross-perl all 2.6.15-3 [38.7 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 dpkg-cross all 2.6.15-3 [49.3 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 crossbuild-essential-arm64 all 12.6 [6572 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 41.8 MB in 1s (55.3 MB/s) Selecting previously unselected package liblocale-gettext-perl. (Reading database ... 11953 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-3+b4_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-3+b4) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.12_all.deb ... Unpacking sensible-utils (0.0.12) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.35-4_amd64.deb ... Unpacking libmagic-mgc (1:5.35-4) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../03-libmagic1_1%3a5.35-4_amd64.deb ... Unpacking libmagic1:amd64 (1:5.35-4) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.35-4_amd64.deb ... Unpacking file (1:5.35-4) ... Selecting previously unselected package ucf. Preparing to unpack .../05-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... 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Unpacking libfile-homedir-perl (1.004-1) ... Selecting previously unselected package libdebian-dpkgcross-perl. Preparing to unpack .../43-libdebian-dpkgcross-perl_2.6.15-3_all.deb ... Unpacking libdebian-dpkgcross-perl (2.6.15-3) ... Selecting previously unselected package dpkg-cross. Preparing to unpack .../44-dpkg-cross_2.6.15-3_all.deb ... Unpacking dpkg-cross (2.6.15-3) ... Selecting previously unselected package crossbuild-essential-arm64. Preparing to unpack .../45-crossbuild-essential-arm64_12.6_all.deb ... Unpacking crossbuild-essential-arm64 (12.6) ... Selecting previously unselected package sbuild-build-depends-core-dummy:arm64. Preparing to unpack .../46-sbuild-build-depends-core-dummy_0.invalid.0_arm64.deb ... Unpacking sbuild-build-depends-core-dummy:arm64 (0.invalid.0) ... Setting up libconfig-inifiles-perl (3.000001-1) ... Setting up libfile-which-perl (1.23-1) ... Setting up libmagic-mgc (1:5.35-4) ... Setting up gcc-8-cross-base (8.3.0-7cross1) ... Setting up libmagic1:amd64 (1:5.35-4) ... Setting up libxml-namespacesupport-perl (1.12-1) ... Setting up binutils-aarch64-linux-gnu (2.31.1-16) ... Setting up file (1:5.35-4) ... Setting up libyaml-perl (1.27-1) ... Setting up libicu63:amd64 (63.1-6) ... Setting up gcc-8-aarch64-linux-gnu-base:amd64 (8.3.0-7cross1) ... Setting up libxml-sax-base-perl (1.09-1) ... Setting up libio-string-perl (1.08-3) ... Setting up cross-config (2.6.15-3) ... Setting up libc6-arm64-cross (2.28-10cross2) ... Setting up cpp-8-aarch64-linux-gnu (8.3.0-7cross1) ... Setting up libitm1-arm64-cross (8.3.0-7cross1) ... Setting up linux-libc-dev-arm64-cross (4.19.28-2cross2) ... Setting up sensible-utils (0.0.12) ... Setting up libfile-homedir-perl (1.004-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7+b3) ... Setting up liblocale-gettext-perl (1.07-3+b4) ... Setting up libatomic1-arm64-cross (8.3.0-7cross1) ... Setting up libgcc1-arm64-cross (1:8.3.0-7cross1) ... Setting up libgomp1-arm64-cross (8.3.0-7cross1) ... Setting up libc6-dev-arm64-cross (2.28-10cross2) ... Setting up libstdc++6-arm64-cross (8.3.0-7cross1) ... Setting up cpp-aarch64-linux-gnu (4:8.3.0-1) ... Setting up ucf (3.0038+nmu1) ... Setting up liblsan0-arm64-cross (8.3.0-7cross1) ... Setting up libubsan1-arm64-cross (8.3.0-7cross1) ... Setting up libtsan0-arm64-cross (8.3.0-7cross1) ... Setting up libxml-sax-perl (1.00+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libasan5-arm64-cross (8.3.0-7cross1) ... Setting up libgcc-8-dev-arm64-cross (8.3.0-7cross1) ... Setting up libxml-libxml-perl (2.0134+dfsg-1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up gcc-8-aarch64-linux-gnu (8.3.0-7cross1) ... Setting up libstdc++-8-dev-arm64-cross (8.3.0-7cross1) ... Setting up libxml-simple-perl (2.25-1) ... Setting up gcc-aarch64-linux-gnu (4:8.3.0-1) ... Setting up g++-8-aarch64-linux-gnu (8.3.0-7cross1) ... Setting up libconfig-auto-perl (0.44-1) ... Setting up g++-aarch64-linux-gnu (4:8.3.0-1) ... Setting up libdebian-dpkgcross-perl (2.6.15-3) ... Setting up dpkg-cross (2.6.15-3) ... Setting up crossbuild-essential-arm64 (12.6) ... Setting up sbuild-build-depends-core-dummy:arm64 (0.invalid.0) ... Processing triggers for libc-bin (2.28-10) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (arm64 included in any all) Setup apt archive ----------------- dpkg-deb: building package 'sbuild-build-depends-essential-dummy' in '/<>/resolver-ChwG4U/apt_archive/sbuild-build-depends-essential-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-essential-dummy dpkg-scanpackages: info: Wrote 2 entries to output Packages file. Ign:1 copy:/<>/resolver-ChwG4U/apt_archive ./ InRelease Get:2 copy:/<>/resolver-ChwG4U/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-ChwG4U/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-ChwG4U/apt_archive ./ Sources [484 B] Get:5 copy:/<>/resolver-ChwG4U/apt_archive ./ Packages [569 B] Fetched 2016 B in 0s (103 kB/s) Reading package lists... Reading package lists... Install essential build dependencies (apt-based resolver) --------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-essential-dummy:arm64 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 840 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-ChwG4U/apt_archive ./ sbuild-build-depends-essential-dummy 0.invalid.0 [840 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 840 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-essential-dummy:arm64. (Reading database ... 15236 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-essential-dummy_0.invalid.0_arm64.deb ... Unpacking sbuild-build-depends-essential-dummy:arm64 (0.invalid.0) ... Setting up sbuild-build-depends-essential-dummy:arm64 (0.invalid.0) ... +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: libc-dev, libstdc++-dev, debhelper (>= 11~), libboost-thread-dev, libboost-system-dev, libboost-filesystem-dev, libboost-program-options-dev, libboost-date-time-dev, libbamtools-dev, libboost-tools-dev, libgoogle-perftools-dev, cmake, libprotobuf-dev, protobuf-compiler Filtered Build-Depends: libc-dev, libstdc++-dev, debhelper (>= 11~), libboost-thread-dev, libboost-system-dev, libboost-filesystem-dev, libboost-program-options-dev, libboost-date-time-dev, libbamtools-dev, libboost-tools-dev, libgoogle-perftools-dev, cmake, libprotobuf-dev, protobuf-compiler dpkg-deb: building package 'sbuild-build-depends-berkeley-express-dummy' in '/<>/resolver-ChwG4U/apt_archive/sbuild-build-depends-berkeley-express-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-berkeley-express-dummy sbuild-build-depends-core-dummy sbuild-build-depends-essential-dummy dpkg-scanpackages: info: Wrote 3 entries to output Packages file. Ign:1 copy:/<>/resolver-ChwG4U/apt_archive ./ InRelease Get:2 copy:/<>/resolver-ChwG4U/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-ChwG4U/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-ChwG4U/apt_archive ./ Sources [756 B] Get:5 copy:/<>/resolver-ChwG4U/apt_archive ./ Packages [805 B] Fetched 2524 B in 0s (132 kB/s) Reading package lists... Reading package lists... Install berkeley-express build dependencies (apt-based resolver) ---------------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cmake cmake-data debhelper dh-autoreconf dh-strip-nondeterminism dwz gcc-8-base:arm64 gettext gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13 libasan5:arm64 libatomic1:arm64 libbamtools-dev:arm64 libbamtools2.5.1:arm64 libboost-atomic1.67-dev:arm64 libboost-atomic1.67.0:arm64 libboost-chrono1.67-dev:arm64 libboost-chrono1.67.0:arm64 libboost-date-time-dev:arm64 libboost-date-time1.67-dev:arm64 libboost-date-time1.67.0:arm64 libboost-filesystem-dev:arm64 libboost-filesystem1.67-dev:arm64 libboost-filesystem1.67.0:arm64 libboost-program-options-dev:arm64 libboost-program-options1.67-dev:arm64 libboost-program-options1.67.0:arm64 libboost-serialization1.67-dev:arm64 libboost-serialization1.67.0:arm64 libboost-system-dev:arm64 libboost-system1.67-dev:arm64 libboost-system1.67.0:arm64 libboost-thread-dev:arm64 libboost-thread1.67-dev:arm64 libboost-thread1.67.0:arm64 libboost-tools-dev libboost1.67-dev:arm64 libboost1.67-tools-dev libbsd0 libc6:arm64 libc6-dev:arm64 libcroco3 libcurl4 libelf1 libexpat1 libfile-stripnondeterminism-perl libgcc-8-dev:arm64 libgcc1:arm64 libglib2.0-0 libgomp1:arm64 libgoogle-perftools-dev:arm64 libgoogle-perftools4:arm64 libgssapi-krb5-2 libitm1:arm64 libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblsan0:arm64 libncurses6 libnghttp2-14 libpipeline1 libprocps7 libprotobuf-dev:arm64 libprotobuf-lite17:arm64 libprotobuf17 libprotobuf17:arm64 libprotoc17 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh2-1 libssl1.1 libstdc++-8-dev:arm64 libstdc++6:arm64 libtcmalloc-minimal4:arm64 libtool libtsan0:arm64 libubsan1:arm64 libuchardet0 libuv1 linux-libc-dev:arm64 lsb-base m4 man-db po-debconf procps protobuf-compiler zlib1g:arm64 zlib1g-dev:arm64 Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation cmake-doc ninja-build dh-make gettext-doc libasprintf-dev libgettextpo-dev groff lrzip libbamtools-doc:arm64 libboost1.67-doc:arm64 libboost-container1.67-dev:arm64 libboost-context1.67-dev:arm64 libboost-coroutine1.67-dev:arm64 libboost-exception1.67-dev:arm64 libboost-fiber1.67-dev:arm64 libboost-graph1.67-dev:arm64 libboost-graph-parallel1.67-dev:arm64 libboost-iostreams1.67-dev:arm64 libboost-locale1.67-dev:arm64 libboost-log1.67-dev:arm64 libboost-math1.67-dev:arm64 libboost-mpi1.67-dev:arm64 libboost-mpi-python1.67-dev:arm64 libboost-numpy1.67-dev:arm64 libboost-python1.67-dev:arm64 libboost-random1.67-dev:arm64 libboost-regex1.67-dev:arm64 libboost-signals1.67-dev:arm64 libboost-stacktrace1.67-dev:arm64 libboost-test1.67-dev:arm64 libboost-timer1.67-dev:arm64 libboost-type-erasure1.67-dev:arm64 libboost-wave1.67-dev:arm64 libmpfrc++-dev:arm64 libntl-dev:arm64 xsltproc doxygen docbook-xml docbook-xsl default-jdk fop glibc-doc:arm64 libc-l10n:arm64 locales:arm64 manpages-dev:arm64 krb5-doc krb5-user libstdc++-8-doc:arm64 libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libidn2-0:arm64 ca-certificates libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales libgpm2 publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl psmisc libprotobuf-dev The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cmake cmake-data debhelper dh-autoreconf dh-strip-nondeterminism dwz gcc-8-base:arm64 gettext gettext-base groff-base intltool-debian libarchive-zip-perl libarchive13 libasan5:arm64 libatomic1:arm64 libbamtools-dev:arm64 libbamtools2.5.1:arm64 libboost-atomic1.67-dev:arm64 libboost-atomic1.67.0:arm64 libboost-chrono1.67-dev:arm64 libboost-chrono1.67.0:arm64 libboost-date-time-dev:arm64 libboost-date-time1.67-dev:arm64 libboost-date-time1.67.0:arm64 libboost-filesystem-dev:arm64 libboost-filesystem1.67-dev:arm64 libboost-filesystem1.67.0:arm64 libboost-program-options-dev:arm64 libboost-program-options1.67-dev:arm64 libboost-program-options1.67.0:arm64 libboost-serialization1.67-dev:arm64 libboost-serialization1.67.0:arm64 libboost-system-dev:arm64 libboost-system1.67-dev:arm64 libboost-system1.67.0:arm64 libboost-thread-dev:arm64 libboost-thread1.67-dev:arm64 libboost-thread1.67.0:arm64 libboost-tools-dev libboost1.67-dev:arm64 libboost1.67-tools-dev libbsd0 libc6:arm64 libc6-dev:arm64 libcroco3 libcurl4 libelf1 libexpat1 libfile-stripnondeterminism-perl libgcc-8-dev:arm64 libgcc1:arm64 libglib2.0-0 libgomp1:arm64 libgoogle-perftools-dev:arm64 libgoogle-perftools4:arm64 libgssapi-krb5-2 libitm1:arm64 libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblsan0:arm64 libncurses6 libnghttp2-14 libpipeline1 libprocps7 libprotobuf-dev:arm64 libprotobuf-lite17:arm64 libprotobuf17 libprotobuf17:arm64 libprotoc17 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh2-1 libssl1.1 libstdc++-8-dev:arm64 libstdc++6:arm64 libtcmalloc-minimal4:arm64 libtool libtsan0:arm64 libubsan1:arm64 libuchardet0 libuv1 linux-libc-dev:arm64 lsb-base m4 man-db po-debconf procps protobuf-compiler sbuild-build-depends-berkeley-express-dummy:arm64 zlib1g:arm64 zlib1g-dev:arm64 0 upgraded, 105 newly installed, 0 to remove and 0 not upgraded. Need to get 48.0 MB of archives. After this operation, 333 MB of additional disk space will be used. Get:1 copy:/<>/resolver-ChwG4U/apt_archive ./ sbuild-build-depends-berkeley-express-dummy 0.invalid.0 [960 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 libbsd0 amd64 0.9.1-2 [99.5 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 bsdmainutils amd64 11.1.2+b1 [191 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 groff-base amd64 1.22.4-3 [916 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libpipeline1 amd64 1.5.1-2 [31.2 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 man-db amd64 2.8.5-2 [1274 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libncurses6 amd64 6.1+20181013-2 [102 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 libprocps7 amd64 2:3.3.15-2 [61.7 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 lsb-base all 10.2019051400 [28.4 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 procps amd64 2:3.3.15-2 [259 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 gettext-base amd64 0.19.8.1-9 [123 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 libsigsegv2 amd64 2.12-2 [32.8 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 m4 amd64 1.4.18-2 [203 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 autoconf all 2.69-11 [341 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 autotools-dev all 20180224.1 [77.0 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 automake all 1:1.16.1-4 [771 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 autopoint all 0.19.8.1-9 [434 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 cmake-data all 3.13.4-1 [1476 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive13 amd64 3.3.3-4 [314 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 libkeyutils1 amd64 1.6-6 [15.0 kB] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5support0 amd64 1.17-2 [65.6 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libk5crypto3 amd64 1.17-2 [121 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libssl1.1 amd64 1.1.1b-2 [1530 kB] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libkrb5-3 amd64 1.17-2 [368 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.17-2 [158 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1 [69.0 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1 [106 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-common all 2.4.47+dfsg-3 [89.4 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-3 [224 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libnghttp2-14 amd64 1.37.0-1 [83.3 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libpsl5 amd64 0.20.2-2 [53.7 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [60.5 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libssh2-1 amd64 1.8.0-2.1 [140 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libcurl4 amd64 7.64.0-3 [331 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libexpat1 amd64 2.2.6-1 [105 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libjsoncpp1 amd64 1.7.4-3 [75.6 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 librhash0 amd64 1.3.8-1 [122 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libuv1 amd64 1.24.1-1 [110 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 cmake amd64 3.13.4-1 [3480 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libtool all 2.4.6-10 [547 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 dh-autoreconf all 19 [16.9 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libarchive-zip-perl all 1.64-1 [96.8 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 libelf1 amd64 0.176-1.1 [161 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 dwz amd64 0.12-3 [78.0 kB] Get:48 http://debian.oregonstate.edu/debian unstable/main amd64 libglib2.0-0 amd64 2.58.3-1 [1258 kB] Get:49 http://debian.oregonstate.edu/debian unstable/main amd64 libcroco3 amd64 0.6.12-3 [145 kB] Get:50 http://debian.oregonstate.edu/debian unstable/main amd64 gettext amd64 0.19.8.1-9 [1303 kB] Get:51 http://debian.oregonstate.edu/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get:52 http://debian.oregonstate.edu/debian unstable/main amd64 po-debconf all 1.0.21 [248 kB] Get:53 http://debian.oregonstate.edu/debian unstable/main amd64 debhelper all 12.1.1 [1016 kB] Get:54 http://debian.oregonstate.edu/debian unstable/main arm64 gcc-8-base arm64 8.3.0-7 [191 kB] Get:55 http://debian.oregonstate.edu/debian unstable/main arm64 libgcc1 arm64 1:8.3.0-7 [34.4 kB] Get:56 http://debian.oregonstate.edu/debian unstable/main arm64 libc6 arm64 2.28-10 [2521 kB] Get:57 http://debian.oregonstate.edu/debian unstable/main arm64 libstdc++6 arm64 8.3.0-7 [363 kB] Get:58 http://debian.oregonstate.edu/debian unstable/main arm64 libasan5 arm64 8.3.0-7 [327 kB] Get:59 http://debian.oregonstate.edu/debian unstable/main arm64 libatomic1 arm64 8.3.0-7 [8804 B] Get:60 http://debian.oregonstate.edu/debian unstable/main arm64 zlib1g arm64 1:1.2.11.dfsg-1 [89.3 kB] Get:61 http://debian.oregonstate.edu/debian unstable/main arm64 libbamtools2.5.1 arm64 2.5.1+dfsg-3 [149 kB] Get:62 http://debian.oregonstate.edu/debian unstable/main arm64 libbamtools-dev arm64 2.5.1+dfsg-3 [21.8 kB] Get:63 http://debian.oregonstate.edu/debian unstable/main arm64 libgomp1 arm64 8.3.0-7 [67.8 kB] Get:64 http://debian.oregonstate.edu/debian unstable/main arm64 libitm1 arm64 8.3.0-7 [24.0 kB] Get:65 http://debian.oregonstate.edu/debian unstable/main arm64 liblsan0 arm64 8.3.0-7 [118 kB] Get:66 http://debian.oregonstate.edu/debian unstable/main arm64 libtsan0 arm64 8.3.0-7 [262 kB] Get:67 http://debian.oregonstate.edu/debian unstable/main arm64 libubsan1 arm64 8.3.0-7 [111 kB] Get:68 http://debian.oregonstate.edu/debian unstable/main arm64 libgcc-8-dev arm64 8.3.0-7 [829 kB] Get:69 http://debian.oregonstate.edu/debian unstable/main arm64 linux-libc-dev arm64 4.19.37-3 [1164 kB] Get:70 http://debian.oregonstate.edu/debian unstable/main arm64 libc6-dev arm64 2.28-10 [2324 kB] Get:71 http://debian.oregonstate.edu/debian unstable/main arm64 libstdc++-8-dev arm64 8.3.0-7 [1501 kB] Get:72 http://debian.oregonstate.edu/debian unstable/main arm64 libboost1.67-dev arm64 1.67.0-13 [8386 kB] Get:73 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-atomic1.67.0 arm64 1.67.0-13 [226 kB] Get:74 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-atomic1.67-dev arm64 1.67.0-13 [225 kB] Get:75 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-system1.67.0 arm64 1.67.0-13 [229 kB] Get:76 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-chrono1.67.0 arm64 1.67.0-13 [233 kB] Get:77 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-chrono1.67-dev arm64 1.67.0-13 [235 kB] Get:78 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-date-time1.67.0 arm64 1.67.0-13 [238 kB] Get:79 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-serialization1.67.0 arm64 1.67.0-13 [312 kB] Get:80 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-serialization1.67-dev arm64 1.67.0-13 [358 kB] Get:81 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-date-time1.67-dev arm64 1.67.0-13 [248 kB] Get:82 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-date-time-dev arm64 1.67.0.1 [3648 B] Get:83 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-filesystem1.67.0 arm64 1.67.0-13 [257 kB] Get:84 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-system1.67-dev arm64 1.67.0-13 [231 kB] Get:85 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-filesystem1.67-dev arm64 1.67.0-13 [266 kB] Get:86 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-filesystem-dev arm64 1.67.0.1 [3684 B] Get:87 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-program-options1.67.0 arm64 1.67.0-13 [343 kB] Get:88 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-program-options1.67-dev arm64 1.67.0-13 [383 kB] Get:89 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-program-options-dev arm64 1.67.0.1 [3656 B] Get:90 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-system-dev arm64 1.67.0.1 [3788 B] Get:91 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-thread1.67.0 arm64 1.67.0-13 [264 kB] Get:92 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-thread1.67-dev arm64 1.67.0-13 [270 kB] Get:93 http://debian.oregonstate.edu/debian unstable/main arm64 libboost-thread-dev arm64 1.67.0.1 [3672 B] Get:94 http://debian.oregonstate.edu/debian unstable/main amd64 libboost1.67-tools-dev amd64 1.67.0-13 [1432 kB] Get:95 http://debian.oregonstate.edu/debian unstable/main amd64 libboost-tools-dev amd64 1.67.0.1 [3824 B] Get:96 http://debian.oregonstate.edu/debian unstable/main arm64 libtcmalloc-minimal4 arm64 2.7-1 [201 kB] Get:97 http://debian.oregonstate.edu/debian unstable/main arm64 libgoogle-perftools4 arm64 2.7-1 [299 kB] Get:98 http://debian.oregonstate.edu/debian unstable/main arm64 libgoogle-perftools-dev arm64 2.7-1 [568 kB] Get:99 http://debian.oregonstate.edu/debian unstable/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-1 [210 kB] Get:100 http://debian.oregonstate.edu/debian unstable/main arm64 libprotobuf17 arm64 3.6.1.3-2 [714 kB] Get:101 http://debian.oregonstate.edu/debian unstable/main arm64 libprotobuf-lite17 arm64 3.6.1.3-2 [150 kB] Get:102 http://debian.oregonstate.edu/debian unstable/main arm64 libprotobuf-dev arm64 3.6.1.3-2 [1061 kB] Get:103 http://debian.oregonstate.edu/debian unstable/main amd64 libprotobuf17 amd64 3.6.1.3-2 [814 kB] Get:104 http://debian.oregonstate.edu/debian unstable/main amd64 libprotoc17 amd64 3.6.1.3-2 [665 kB] Get:105 http://debian.oregonstate.edu/debian unstable/main amd64 protobuf-compiler amd64 3.6.1.3-2 [64.9 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 48.0 MB in 1s (58.6 MB/s) Selecting previously unselected package libbsd0:amd64. 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Setting up libglib2.0-0:amd64 (2.58.3-1) ... No schema files found: doing nothing. Setting up libssl1.1:amd64 (1.1.1b-2) ... Setting up libprocps7:amd64 (2:3.3.15-2) ... Setting up libnghttp2-14:amd64 (1.37.0-1) ... Setting up linux-libc-dev:arm64 (4.19.37-3) ... Setting up gettext-base (0.19.8.1-9) ... Setting up libboost-tools-dev (1.67.0.1) ... Setting up libldap-common (2.4.47+dfsg-3) ... Setting up libkrb5support0:amd64 (1.17-2) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1) ... Setting up autotools-dev (20180224.1) ... Setting up libuv1:amd64 (1.24.1-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libncurses6:amd64 (6.1+20181013-2) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up gcc-8-base:arm64 (8.3.0-7) ... Setting up autopoint (0.19.8.1-9) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up libk5crypto3:amd64 (1.17-2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1) ... Setting up librhash0:amd64 (1.3.8-1) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up procps (2:3.3.15-2) ... update-alternatives: using /usr/bin/w.procps to provide /usr/bin/w (w) in auto mode Setting up libssh2-1:amd64 (1.8.0-2.1) ... Setting up cmake-data (3.13.4-1) ... Setting up libkrb5-3:amd64 (1.17-2) ... Setting up libprotobuf17:amd64 (3.6.1.3-2) ... Setting up libbsd0:amd64 (0.9.1-2) ... Setting up libelf1:amd64 (0.176-1.1) ... Setting up libjsoncpp1:amd64 (1.7.4-3) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up gettext (0.19.8.1-9) ... Setting up libprotoc17:amd64 (3.6.1.3-2) ... Setting up protobuf-compiler (3.6.1.3-2) ... Setting up libtool (2.4.6-10) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-3) ... Setting up m4 (1.4.18-2) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-2) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3) ... Setting up libcurl4:amd64 (7.64.0-3) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up po-debconf (1.0.21) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up cmake (3.13.4-1) ... Setting up dh-autoreconf (19) ... Setting up libc6:arm64 (2.28-10) ... Setting up libc6-dev:arm64 (2.28-10) ... Setting up libitm1:arm64 (8.3.0-7) ... Setting up libgcc1:arm64 (1:8.3.0-7) ... Setting up debhelper (12.1.1) ... Setting up zlib1g:arm64 (1:1.2.11.dfsg-1) ... 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Processing triggers for libc-bin (2.28-10) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.9.0-8-amd64 amd64 (x86_64) Toolchain package versions: binutils_2.31.1-16 dpkg-dev_1.19.6 g++-8_8.3.0-7 gcc-8_8.3.0-7 libc6-dev_2.28-10 libstdc++-8-dev_8.3.0-7 libstdc++-8-dev-arm64-cross_8.3.0-7cross1 libstdc++6_8.3.0-7 libstdc++6-arm64-cross_8.3.0-7cross1 linux-libc-dev_4.19.37-3 Package versions: adduser_3.118 apt_1.8.2 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.3 base-passwd_3.5.46 bash_5.0-4 binutils_2.31.1-16 binutils-aarch64-linux-gnu_2.31.1-16 binutils-common_2.31.1-16 binutils-x86-64-linux-gnu_2.31.1-16 bsdmainutils_11.1.2+b1 bsdutils_1:2.33.1-0.1 build-essential_12.6 bzip2_1.0.6-9 cmake_3.13.4-1 cmake-data_3.13.4-1 coreutils_8.30-3 cpp_4:8.3.0-1 cpp-8_8.3.0-7 cpp-8-aarch64-linux-gnu_8.3.0-7cross1 cpp-aarch64-linux-gnu_4:8.3.0-1 cross-config_2.6.15-3 crossbuild-essential-arm64_12.6 dash_0.5.10.2-5 debconf_1.5.72 debhelper_12.1.1 debian-archive-keyring_2019.1 debianutils_4.8.6.1 dh-autoreconf_19 dh-strip-nondeterminism_1.1.2-1 diffutils_1:3.7-3 dpkg_1.19.6 dpkg-cross_2.6.15-3 dpkg-dev_1.19.6 dwz_0.12-3 e2fsprogs_1.45.1-3 fakeroot_1.23-1 fdisk_2.33.1-0.1 file_1:5.35-4 findutils_4.6.0+git+20190209-2 g++_4:8.3.0-1 g++-8_8.3.0-7 g++-8-aarch64-linux-gnu_8.3.0-7cross1 g++-aarch64-linux-gnu_4:8.3.0-1 gcc_4:8.3.0-1 gcc-8_8.3.0-7 gcc-8-aarch64-linux-gnu_8.3.0-7cross1 gcc-8-aarch64-linux-gnu-base_8.3.0-7cross1 gcc-8-base_8.3.0-7 gcc-8-cross-base_8.3.0-7cross1 gcc-aarch64-linux-gnu_4:8.3.0-1 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gpgv_2.2.13-2 grep_3.3-1 groff-base_1.22.4-3 gzip_1.9-3 hostname_3.21 init-system-helpers_1.56+nmu1 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-4 libapt-pkg5.0_1.8.2 libarchive-zip-perl_1.64-1 libarchive13_3.3.3-4 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libgnutls30_3.6.7-3 libgomp1_8.3.0-7 libgomp1-arm64-cross_8.3.0-7cross1 libgoogle-perftools-dev_2.7-1 libgoogle-perftools4_2.7-1 libgpg-error0_1.35-1 libgssapi-krb5-2_1.17-2 libhogweed4_3.4.1-1 libicu63_63.1-6 libidn2-0_2.0.5-1 libio-string-perl_1.08-3 libisl19_0.20-2 libitm1_8.3.0-7 libitm1-arm64-cross_8.3.0-7cross1 libjsoncpp1_1.7.4-3 libk5crypto3_1.17-2 libkeyutils1_1.6-6 libkrb5-3_1.17-2 libkrb5support0_1.17-2 libldap-2.4-2_2.4.47+dfsg-3 libldap-common_2.4.47+dfsg-3 liblocale-gettext-perl_1.07-3+b4 liblsan0_8.3.0-7 liblsan0-arm64-cross_8.3.0-7cross1 liblz4-1_1.8.3-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.35-4 libmagic1_1:5.35-4 libmount1_2.33.1-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libmpx2_8.3.0-7 libncurses6_6.1+20181013-2 libncursesw6_6.1+20181013-2 libnettle6_3.4.1-1 libnghttp2-14_1.37.0-1 libp11-kit0_0.23.15-2 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre3_2:8.39-12 libperl5.28_5.28.1-6 libpipeline1_1.5.1-2 libprocps7_2:3.3.15-2 libprotobuf-dev_3.6.1.3-2 libprotobuf-lite17_3.6.1.3-2 libprotobuf17_3.6.1.3-2 libprotoc17_3.6.1.3-2 libpsl5_0.20.2-2 libquadmath0_8.3.0-7 librhash0_1.3.8-1 librtmp1_2.4+20151223.gitfa8646d.1-2 libsasl2-2_2.1.27+dfsg-1 libsasl2-modules-db_2.1.27+dfsg-1 libseccomp2_2.3.3-4 libselinux1_2.8-1+b1 libsemanage-common_2.8-2 libsemanage1_2.8-2 libsepol1_2.8-1 libsigsegv2_2.12-2 libsmartcols1_2.33.1-0.1 libss2_1.45.1-3 libssh2-1_1.8.0-2.1 libssl1.1_1.1.1b-2 libstdc++-8-dev_8.3.0-7 libstdc++-8-dev-arm64-cross_8.3.0-7cross1 libstdc++6_8.3.0-7 libstdc++6-arm64-cross_8.3.0-7cross1 libsystemd0_241-5 libtasn1-6_4.13-3 libtcmalloc-minimal4_2.7-1 libtinfo6_6.1+20181013-2 libtool_2.4.6-10 libtsan0_8.3.0-7 libtsan0-arm64-cross_8.3.0-7cross1 libubsan1_8.3.0-7 libubsan1-arm64-cross_8.3.0-7cross1 libuchardet0_0.0.6-3 libudev1_241-5 libunistring2_0.9.10-1 libuuid1_2.33.1-0.1 libuv1_1.24.1-1 libxml-libxml-perl_2.0134+dfsg-1 libxml-namespacesupport-perl_1.12-1 libxml-sax-base-perl_1.09-1 libxml-sax-perl_1.00+dfsg-1 libxml-simple-perl_2.25-1 libxml2_2.9.4+dfsg1-7+b3 libyaml-perl_1.27-1 libzstd1_1.3.8+dfsg-3 linux-libc-dev_4.19.37-3 linux-libc-dev-arm64-cross_4.19.28-2cross2 login_1:4.5-1.1 lsb-base_10.2019051400 m4_1.4.18-2 make_4.2.1-1.2 man-db_2.8.5-2 mawk_1.3.3-17+b3 mount_2.33.1-0.1 ncurses-base_6.1+20181013-2 ncurses-bin_6.1+20181013-2 passwd_1:4.5-1.1 patch_2.7.6-3 perl_5.28.1-6 perl-base_5.28.1-6 perl-modules-5.28_5.28.1-6 po-debconf_1.0.21 procps_2:3.3.15-2 protobuf-compiler_3.6.1.3-2 sbuild-build-depends-berkeley-express-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-essential-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 sysvinit-utils_2.93-8 tar_1.30+dfsg-6 tzdata_2019a-1 ucf_3.0038+nmu1 util-linux_2.33.1-0.1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1 zlib1g-dev_1:1.2.11.dfsg-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Mon Apr 9 06:46:11 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./berkeley-express_1.5.2+dfsg-1.dsc dpkg-source: info: extracting berkeley-express in /<>/berkeley-express-1.5.2+dfsg dpkg-source: info: unpacking berkeley-express_1.5.2+dfsg.orig.tar.xz dpkg-source: info: unpacking berkeley-express_1.5.2+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling-fixes dpkg-source: info: applying fix-bamtools-path dpkg-source: info: applying drop-zlib dpkg-source: info: applying gcc-6.patch dpkg-source: info: applying correct-debug-flags.patch dpkg-source: info: applying privacy-breach.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf CONFIG_SITE=/etc/dpkg-cross/cross-config.arm64 DEB_BUILD_OPTIONS=nocheck HOME=/sbuild-nonexistent LANG=en_US.UTF-8 LC_ALL=POSIX LOGNAME=helmut PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=unstable-amd64-sbuild SCHROOT_CHROOT_NAME=unstable-amd64-sbuild SCHROOT_COMMAND=env SCHROOT_GID=1003 SCHROOT_GROUP=helmut SCHROOT_SESSION_ID=unstable-amd64-sbuild-bb6e93f4-20c0-46d6-99cf-94c3921d1a8f SCHROOT_UID=1003 SCHROOT_USER=helmut SHELL=/bin/sh USER=helmut dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package berkeley-express dpkg-buildpackage: info: source version 1.5.2+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-architecture: warning: specified GNU system type aarch64-linux-gnu does not match CC system type x86_64-linux-gnu, try setting a correct CC environment variable dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 fakeroot debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/<>/berkeley-express-1.5.2+dfsg' dh_clean src/config.h make[1]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg' debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a cd obj-aarch64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_SYSTEM_NAME=Linux -DCMAKE_SYSTEM_PROCESSOR=aarch64 -DCMAKE_C_COMPILER=aarch64-linux-gnu-gcc -DCMAKE_CXX_COMPILER=aarch64-linux-gnu-g\+\+ -DPKG_CONFIG_EXECUTABLE=/usr/bin/aarch64-linux-gnu-pkg-config -DPKGCONFIG_EXECUTABLE=/usr/bin/aarch64-linux-gnu-pkg-config -DQMAKE_EXECUTABLE=/usr/bin/aarch64-linux-gnu-qmake -DCMAKE_INSTALL_LIBDIR=lib/aarch64-linux-gnu .. -- The C compiler identification is GNU 8.3.0 -- The CXX compiler identification is GNU 8.3.0 -- Check for working C compiler: /usr/bin/aarch64-linux-gnu-gcc -- Check for working C compiler: /usr/bin/aarch64-linux-gnu-gcc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/aarch64-linux-gnu-g++ -- Check for working CXX compiler: /usr/bin/aarch64-linux-gnu-g++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Looking for pthread.h -- Looking for pthread.h - found -- Looking for pthread_create -- Looking for pthread_create - not found -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE -- Boost version: 1.67.0 -- Found the following Boost libraries: -- thread -- system -- filesystem -- program_options -- date_time -- chrono -- atomic -- Found GPERFTOOLS_TCMALLOC: /usr/lib/aarch64-linux-gnu/libtcmalloc.so -- Found Protobuf: /usr/lib/aarch64-linux-gnu/libprotobuf.so;-lpthread (found version "3.6.1") -- Do not try to find libbamtools.a -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR PKGCONFIG_EXECUTABLE PKG_CONFIG_EXECUTABLE QMAKE_EXECUTABLE -- Build files have been written to: /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu dh_auto_build -a cd obj-aarch64-linux-gnu && make -j1 "INSTALL=install --strip-program=true" PKG_CONFIG=aarch64-linux-gnu-pkg-config CXX=aarch64-linux-gnu-g\+\+ CC=aarch64-linux-gnu-gcc make[1]: Entering directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -S/<>/berkeley-express-1.5.2+dfsg -B/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/CMakeFiles /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/depend make[3]: Entering directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' [ 5%] Running cpp protocol buffer compiler on /<>/berkeley-express-1.5.2+dfsg/src/targets.proto cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/protoc --cpp_out /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src -I /<>/berkeley-express-1.5.2+dfsg/src /<>/berkeley-express-1.5.2+dfsg/src/targets.proto [libprotobuf WARNING google/protobuf/compiler/parser.cc:562] No syntax specified for the proto file: targets.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.) [ 11%] Running cpp protocol buffer compiler on /<>/berkeley-express-1.5.2+dfsg/src/alignments.proto cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/protoc --cpp_out /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src -I /<>/berkeley-express-1.5.2+dfsg/src /<>/berkeley-express-1.5.2+dfsg/src/alignments.proto [libprotobuf WARNING google/protobuf/compiler/parser.cc:562] No syntax specified for the proto file: alignments.proto. Please use 'syntax = "proto2";' or 'syntax = "proto3";' to specify a syntax version. (Defaulted to proto2 syntax.) cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/berkeley-express-1.5.2+dfsg /<>/berkeley-express-1.5.2+dfsg/src /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/express.dir/DependInfo.cmake --color= Scanning dependencies of target express make[3]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/build make[3]: Entering directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' [ 16%] Building CXX object src/CMakeFiles/express.dir/biascorrection.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/biascorrection.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/biascorrection.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 22%] Building CXX object src/CMakeFiles/express.dir/bundles.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/bundles.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/bundles.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 27%] Building CXX object src/CMakeFiles/express.dir/directiondetector.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/directiondetector.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/directiondetector.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 33%] Building CXX object src/CMakeFiles/express.dir/fragments.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/fragments.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/fragments.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 38%] Building CXX object src/CMakeFiles/express.dir/lengthdistribution.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/lengthdistribution.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/lengthdistribution.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 44%] Building CXX object src/CMakeFiles/express.dir/main.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/main.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/main.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 50%] Building CXX object src/CMakeFiles/express.dir/mapparser.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/mapparser.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/mapparser.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 55%] Building CXX object src/CMakeFiles/express.dir/markovmodel.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/markovmodel.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/markovmodel.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 61%] Building CXX object src/CMakeFiles/express.dir/mismatchmodel.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/mismatchmodel.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/mismatchmodel.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 66%] Building CXX object src/CMakeFiles/express.dir/robertsfilter.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/robertsfilter.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/robertsfilter.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 72%] Building CXX object src/CMakeFiles/express.dir/sequence.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/sequence.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/sequence.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 77%] Building CXX object src/CMakeFiles/express.dir/targets.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/targets.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/targets.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 83%] Building CXX object src/CMakeFiles/express.dir/threadsafety.cpp.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/threadsafety.cpp.o -c /<>/berkeley-express-1.5.2+dfsg/src/threadsafety.cpp : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 88%] Building CXX object src/CMakeFiles/express.dir/alignments.pb.cc.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/alignments.pb.cc.o -c /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src/alignments.pb.cc : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [ 94%] Building CXX object src/CMakeFiles/express.dir/targets.pb.cc.o cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/aarch64-linux-gnu-g++ -I/usr/include/bamtools -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -o CMakeFiles/express.dir/targets.pb.cc.o -c /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src/targets.pb.cc : warning: "__FILE__" redefined [-Wbuiltin-macro-redefined] [100%] Linking CXX executable express cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/express.dir/link.txt --verbose=1 /usr/bin/aarch64-linux-gnu-g++ -g -O2 -fdebug-prefix-map=/<>/berkeley-express-1.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D__FILE__=\"\" -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/express.dir/biascorrection.cpp.o CMakeFiles/express.dir/bundles.cpp.o CMakeFiles/express.dir/directiondetector.cpp.o CMakeFiles/express.dir/fragments.cpp.o CMakeFiles/express.dir/lengthdistribution.cpp.o CMakeFiles/express.dir/main.cpp.o CMakeFiles/express.dir/mapparser.cpp.o CMakeFiles/express.dir/markovmodel.cpp.o CMakeFiles/express.dir/mismatchmodel.cpp.o CMakeFiles/express.dir/robertsfilter.cpp.o CMakeFiles/express.dir/sequence.cpp.o CMakeFiles/express.dir/targets.cpp.o CMakeFiles/express.dir/threadsafety.cpp.o CMakeFiles/express.dir/alignments.pb.cc.o CMakeFiles/express.dir/targets.pb.cc.o -o express -lboost_thread -lpthread -lboost_system -lboost_filesystem -lboost_program_options -lboost_date_time -lboost_chrono -lboost_atomic -lbamtools -lprotobuf -lpthread -lrt make[3]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' [100%] Built target express make[2]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' dh_auto_test -a create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_installdirs -a dh_auto_install -a cd obj-aarch64-linux-gnu && make -j1 install DESTDIR=/<>/berkeley-express-1.5.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -S/<>/berkeley-express-1.5.2+dfsg -B/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/CMakeFiles /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/depend make[3]: Entering directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' cd /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/berkeley-express-1.5.2+dfsg /<>/berkeley-express-1.5.2+dfsg/src /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/express.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/express.dir/build.make src/CMakeFiles/express.dir/build make[3]: Entering directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' make[3]: Nothing to be done for 'src/CMakeFiles/express.dir/build'. make[3]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' [100%] Built target express make[2]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/berkeley-express-1.5.2+dfsg/debian/tmp/usr/bin/express make[1]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg/obj-aarch64-linux-gnu' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a debian/rules override_dh_compress make[1]: Entering directory '/<>/berkeley-express-1.5.2+dfsg' dh_compress --exclude=express-doc.pdf make[1]: Leaving directory '/<>/berkeley-express-1.5.2+dfsg' dh_fixperms -a dh_missing -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/berkeley-express/usr/lib/debian-med/bin/express was not linked against libboost_chrono.so.1.67.0 (it uses none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/berkeley-express/usr/lib/debian-med/bin/express was not linked against librt.so.1 (it uses none of the library's symbols) dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/berkeley-express/usr/lib/debian-med/bin/express was not linked against libboost_atomic.so.1.67.0 (it uses none of the library's symbols) dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'berkeley-express' in '../berkeley-express_1.5.2+dfsg-1_arm64.deb'. dpkg-deb: building package 'berkeley-express-dbgsym' in '../berkeley-express-dbgsym_1.5.2+dfsg-1_arm64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../berkeley-express_1.5.2+dfsg-1_arm64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2019-05-30T17:27:36Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ lintian ------- Setup apt archive ----------------- Merged Build-Depends: lintian:amd64 Filtered Build-Depends: lintian:amd64 dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/<>/resolver-ChwG4U/apt_archive/sbuild-build-depends-lintian-dummy.deb'. dpkg-scanpackages: warning: Packages in archive but missing from override file: dpkg-scanpackages: warning: sbuild-build-depends-berkeley-express-dummy sbuild-build-depends-core-dummy sbuild-build-depends-essential-dummy sbuild-build-depends-lintian-dummy dpkg-scanpackages: info: Wrote 4 entries to output Packages file. Ign:1 copy:/<>/resolver-ChwG4U/apt_archive ./ InRelease Get:2 copy:/<>/resolver-ChwG4U/apt_archive ./ Release [963 B] Ign:3 copy:/<>/resolver-ChwG4U/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-ChwG4U/apt_archive ./ Sources [879 B] Get:5 copy:/<>/resolver-ChwG4U/apt_archive ./ Packages [924 B] Fetched 2766 B in 0s (127 kB/s) Reading package lists... Reading package lists... Install lintian build dependencies (apt-based resolver) ------------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libcapture-tiny-perl libcgi-pm-perl libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libio-async-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libipc-system-simple-perl liblist-moreutils-perl libmailtools-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libparse-debianchangelog-perl libpath-tiny-perl libreadline7 libsqlite3-0 libstruct-dumb-perl libsub-name-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl liburi-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common t1utils Suggested packages: libdata-dump-perl ca-certificates libhtml-template-perl libwww-perl binutils-multiarch libtext-template-perl readline-doc Recommended packages: gnupg libcgi-fast-perl libhttp-message-perl libasync-mergepoint-perl libsereal-perl libtest-fatal-perl libtest-refcount-perl libdigest-bubblebabble-perl libnet-dns-sec-perl libnet-libidn-perl libauthen-sasl-perl libunicode-utf8-perl libperlio-gzip-perl The following NEW packages will be installed: diffstat gpg gpgconf libapt-pkg-perl libassuan0 libcapture-tiny-perl libcgi-pm-perl libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl libexporter-tiny-perl libfile-basedir-perl libfuture-perl libhtml-parser-perl libhtml-tagset-perl libio-async-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libipc-system-simple-perl liblist-moreutils-perl libmailtools-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl libnet-ssleay-perl libparse-debianchangelog-perl libpath-tiny-perl libreadline7 libsqlite3-0 libstruct-dumb-perl libsub-name-perl libtext-levenshtein-perl libtimedate-perl libtry-tiny-perl liburi-perl libyaml-0-2 libyaml-libyaml-perl lintian netbase patchutils perl-openssl-defaults readline-common sbuild-build-depends-lintian-dummy:arm64 t1utils 0 upgraded, 47 newly installed, 0 to remove and 0 not upgraded. Need to get 6238 kB of archives. After this operation, 16.6 MB of additional disk space will be used. Get:1 copy:/<>/resolver-ChwG4U/apt_archive ./ sbuild-build-depends-lintian-dummy 0.invalid.0 [848 B] Get:2 http://debian.oregonstate.edu/debian unstable/main amd64 netbase all 5.6 [19.4 kB] Get:3 http://debian.oregonstate.edu/debian unstable/main amd64 readline-common all 7.0-5 [70.6 kB] Get:4 http://debian.oregonstate.edu/debian unstable/main amd64 diffstat amd64 1.62-1 [33.4 kB] Get:5 http://debian.oregonstate.edu/debian unstable/main amd64 libassuan0 amd64 2.5.2-1 [49.4 kB] Get:6 http://debian.oregonstate.edu/debian unstable/main amd64 libreadline7 amd64 7.0-5 [151 kB] Get:7 http://debian.oregonstate.edu/debian unstable/main amd64 gpgconf amd64 2.2.13-2 [512 kB] Get:8 http://debian.oregonstate.edu/debian unstable/main amd64 libsqlite3-0 amd64 3.27.2-2 [640 kB] Get:9 http://debian.oregonstate.edu/debian unstable/main amd64 gpg amd64 2.2.13-2 [866 kB] Get:10 http://debian.oregonstate.edu/debian unstable/main amd64 libapt-pkg-perl amd64 0.1.34+b1 [71.2 kB] Get:11 http://debian.oregonstate.edu/debian unstable/main amd64 libcapture-tiny-perl all 0.48-1 [26.0 kB] Get:12 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-tagset-perl all 3.20-3 [12.7 kB] Get:13 http://debian.oregonstate.edu/debian unstable/main amd64 liburi-perl all 1.76-1 [89.9 kB] Get:14 http://debian.oregonstate.edu/debian unstable/main amd64 libhtml-parser-perl amd64 3.72-3+b3 [105 kB] Get:15 http://debian.oregonstate.edu/debian unstable/main amd64 libcgi-pm-perl all 4.40-1 [222 kB] Get:16 http://debian.oregonstate.edu/debian unstable/main amd64 libsub-name-perl amd64 0.21-1+b3 [13.6 kB] Get:17 http://debian.oregonstate.edu/debian unstable/main amd64 libclass-accessor-perl all 0.51-1 [23.2 kB] Get:18 http://debian.oregonstate.edu/debian unstable/main amd64 libclone-perl amd64 0.41-1+b1 [14.6 kB] Get:19 http://debian.oregonstate.edu/debian unstable/main amd64 libdigest-hmac-perl all 1.03+dfsg-2 [10.6 kB] Get:20 http://debian.oregonstate.edu/debian unstable/main amd64 libtimedate-perl all 2.3000-2 [42.2 kB] Get:21 http://debian.oregonstate.edu/debian unstable/main amd64 perl-openssl-defaults amd64 3 [6782 B] Get:22 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-ssleay-perl amd64 1.85-2+b1 [308 kB] Get:23 http://debian.oregonstate.edu/debian unstable/main amd64 libio-socket-ssl-perl all 2.060-3 [207 kB] Get:24 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-smtp-ssl-perl all 1.04-1 [6184 B] Get:25 http://debian.oregonstate.edu/debian unstable/main amd64 libmailtools-perl all 2.18-1 [88.5 kB] Get:26 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-ip-perl all 1.26-2 [29.0 kB] Get:27 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-dns-perl all 1.19-1 [372 kB] Get:28 http://debian.oregonstate.edu/debian unstable/main amd64 libnet-domain-tld-perl all 1.75-1 [33.3 kB] Get:29 http://debian.oregonstate.edu/debian unstable/main amd64 libemail-valid-perl all 1.202-1 [23.0 kB] Get:30 http://debian.oregonstate.edu/debian unstable/main amd64 libexporter-tiny-perl all 1.002001-1 [36.9 kB] Get:31 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-system-simple-perl all 1.25-4 [26.5 kB] Get:32 http://debian.oregonstate.edu/debian unstable/main amd64 libfile-basedir-perl all 0.08-1 [17.7 kB] Get:33 http://debian.oregonstate.edu/debian unstable/main amd64 libfuture-perl all 0.39-1 [74.5 kB] Get:34 http://debian.oregonstate.edu/debian unstable/main amd64 libstruct-dumb-perl all 0.09-1 [11.1 kB] Get:35 http://debian.oregonstate.edu/debian unstable/main amd64 libio-async-perl all 0.72-1 [262 kB] Get:36 http://debian.oregonstate.edu/debian unstable/main amd64 libio-pty-perl amd64 1:1.08-1.1+b5 [33.7 kB] Get:37 http://debian.oregonstate.edu/debian unstable/main amd64 libipc-run-perl all 20180523.0-1 [101 kB] Get:38 http://debian.oregonstate.edu/debian unstable/main amd64 liblist-moreutils-perl amd64 0.416-1+b4 [64.2 kB] Get:39 http://debian.oregonstate.edu/debian unstable/main amd64 libparse-debianchangelog-perl all 1.2.0-13 [59.5 kB] Get:40 http://debian.oregonstate.edu/debian unstable/main amd64 libpath-tiny-perl all 0.108-1 [53.3 kB] Get:41 http://debian.oregonstate.edu/debian unstable/main amd64 libtext-levenshtein-perl all 0.13-1 [11.1 kB] Get:42 http://debian.oregonstate.edu/debian unstable/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB] Get:43 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-0-2 amd64 0.2.1-1 [47.2 kB] Get:44 http://debian.oregonstate.edu/debian unstable/main amd64 libyaml-libyaml-perl amd64 0.76+repack-1 [33.1 kB] Get:45 http://debian.oregonstate.edu/debian unstable/main amd64 patchutils amd64 0.3.4-2 [90.4 kB] Get:46 http://debian.oregonstate.edu/debian unstable/main amd64 t1utils amd64 1.41-3 [62.3 kB] Get:47 http://debian.oregonstate.edu/debian unstable/main amd64 lintian all 2.15.0 [1181 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 6238 kB in 0s (31.0 MB/s) Selecting previously unselected package netbase. (Reading database ... 36008 files and directories currently installed.) Preparing to unpack .../00-netbase_5.6_all.deb ... Unpacking netbase (5.6) ... Selecting previously unselected package readline-common. Preparing to unpack .../01-readline-common_7.0-5_all.deb ... Unpacking readline-common (7.0-5) ... Selecting previously unselected package diffstat. Preparing to unpack .../02-diffstat_1.62-1_amd64.deb ... Unpacking diffstat (1.62-1) ... Selecting previously unselected package libassuan0:amd64. Preparing to unpack .../03-libassuan0_2.5.2-1_amd64.deb ... Unpacking libassuan0:amd64 (2.5.2-1) ... Selecting previously unselected package libreadline7:amd64. Preparing to unpack .../04-libreadline7_7.0-5_amd64.deb ... Unpacking libreadline7:amd64 (7.0-5) ... Selecting previously unselected package gpgconf. Preparing to unpack .../05-gpgconf_2.2.13-2_amd64.deb ... Unpacking gpgconf (2.2.13-2) ... Selecting previously unselected package libsqlite3-0:amd64. 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Preparing to unpack .../46-sbuild-build-depends-lintian-dummy_0.invalid.0_arm64.deb ... Unpacking sbuild-build-depends-lintian-dummy:arm64 (0.invalid.0) ... Setting up libapt-pkg-perl (0.1.34+b1) ... Setting up libstruct-dumb-perl (0.09-1) ... Setting up libio-pty-perl (1:1.08-1.1+b5) ... Setting up libclone-perl (0.41-1+b1) ... Setting up libyaml-0-2:amd64 (0.2.1-1) ... Setting up libhtml-tagset-perl (3.20-3) ... Setting up libsqlite3-0:amd64 (3.27.2-2) ... Setting up libfuture-perl (0.39-1) ... Setting up libyaml-libyaml-perl (0.76+repack-1) ... Setting up libtry-tiny-perl (0.30-1) ... Setting up perl-openssl-defaults:amd64 (3) ... Setting up libtext-levenshtein-perl (0.13-1) ... Setting up libassuan0:amd64 (2.5.2-1) ... Setting up libio-async-perl (0.72-1) ... Setting up patchutils (0.3.4-2) ... Setting up libdigest-hmac-perl (1.03+dfsg-2) ... Setting up libipc-system-simple-perl (1.25-4) ... Setting up libnet-domain-tld-perl (1.75-1) ... Setting up t1utils (1.41-3) ... Setting up diffstat (1.62-1) ... Setting up libipc-run-perl (20180523.0-1) ... Setting up libcapture-tiny-perl (0.48-1) ... Setting up libtimedate-perl (2.3000-2) ... Setting up libsub-name-perl (0.21-1+b3) ... Setting up libpath-tiny-perl (0.108-1) ... Setting up netbase (5.6) ... Setting up libexporter-tiny-perl (1.002001-1) ... Setting up libclass-accessor-perl (0.51-1) ... Setting up libnet-ip-perl (1.26-2) ... Setting up readline-common (7.0-5) ... Setting up liburi-perl (1.76-1) ... Setting up libreadline7:amd64 (7.0-5) ... Setting up libnet-ssleay-perl (1.85-2+b1) ... Setting up libfile-basedir-perl (0.08-1) ... Setting up liblist-moreutils-perl (0.416-1+b4) ... Setting up libnet-dns-perl (1.19-1) ... Setting up libhtml-parser-perl (3.72-3+b3) ... Setting up gpgconf (2.2.13-2) ... Setting up libio-socket-ssl-perl (2.060-3) ... Setting up gpg (2.2.13-2) ... Setting up libcgi-pm-perl (4.40-1) ... Setting up libnet-smtp-ssl-perl (1.04-1) ... Setting up libmailtools-perl (2.18-1) ... Setting up libparse-debianchangelog-perl (1.2.0-13) ... Setting up libemail-valid-perl (1.202-1) ... Setting up lintian (2.15.0) ... Setting up sbuild-build-depends-lintian-dummy:arm64 (0.invalid.0) ... Processing triggers for man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Processing triggers for libc-bin (2.28-10) ... I: Lintian run was successful. +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ berkeley-express_1.5.2+dfsg-1_arm64.changes: -------------------------------------------- Format: 1.8 Date: Sun, 08 Apr 2018 18:07:07 +0200 Source: berkeley-express Binary: berkeley-express berkeley-express-dbgsym Built-For-Profiles: cross nocheck Architecture: arm64 Version: 1.5.2+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: berkeley-express - Streaming quantification for high-throughput sequencing Changes: berkeley-express (1.5.2+dfsg-1) unstable; urgency=medium . * Team upload . [ Steffen Moeller ] * d/control: update stadards version to 4.1.3 (no changes required) * d/u/metadata: - added references to registries - yamllint cleanliness . [ Andreas Tille ] * New upstream version * d/watch: point to GitHub after upstream has added release tags * Point Vcs fields to salsa.debian.org (the URL is also normalized to the package name as per cme and general considerations) * debhelper 11 * express-doc.pdf is not in upstream source any more * Exclude binaries and other unneeded files like download archives of previous versions * provide html documentation * avoid privace breach JS in html doc Checksums-Sha1: fe44654bae456d1f4fb17a8d21b88785d875fdc1 5107684 berkeley-express-dbgsym_1.5.2+dfsg-1_arm64.deb f6e0b9277029a0d52cce82a5c7c93e966c69462a 6804 berkeley-express_1.5.2+dfsg-1_arm64.buildinfo 5af75a11291e3e20936e663c6648ebc0f07b7bf5 228052 berkeley-express_1.5.2+dfsg-1_arm64.deb Checksums-Sha256: d29399e4048af332bf158755a29faefde53baa35622900309a10881071ab0743 5107684 berkeley-express-dbgsym_1.5.2+dfsg-1_arm64.deb ce935bd138d865491407b125d3dcc93550285722617285d7189743f1fc508193 6804 berkeley-express_1.5.2+dfsg-1_arm64.buildinfo 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berkeley-express-dbgsym_1.5.2+dfsg-1_arm64.deb 5af75a11291e3e20936e663c6648ebc0f07b7bf5 228052 berkeley-express_1.5.2+dfsg-1_arm64.deb Checksums-Sha256: d29399e4048af332bf158755a29faefde53baa35622900309a10881071ab0743 5107684 berkeley-express-dbgsym_1.5.2+dfsg-1_arm64.deb b63cc7c2e3774c01b7821dc4b3c7151134117396456f613275d136d3b174aba4 228052 berkeley-express_1.5.2+dfsg-1_arm64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Thu, 30 May 2019 17:27:35 +0000 Build-Path: /<>/berkeley-express-1.5.2+dfsg Installed-Build-Depends: autoconf (= 2.69-11), automake (= 1:1.16.1-4), autopoint (= 0.19.8.1-9), autotools-dev (= 20180224.1), base-files (= 10.3), base-passwd (= 3.5.46), bash (= 5.0-4), binutils (= 2.31.1-16), binutils-common (= 2.31.1-16), binutils-x86-64-linux-gnu (= 2.31.1-16), bsdmainutils (= 11.1.2+b1), bsdutils (= 1:2.33.1-0.1), build-essential (= 12.6), bzip2 (= 1.0.6-9), cmake (= 3.13.4-1), cmake-data (= 3.13.4-1), coreutils (= 8.30-3), cpp (= 4:8.3.0-1), cpp-8 (= 8.3.0-7), dash (= 0.5.10.2-5), debconf (= 1.5.72), debhelper (= 12.1.1), debianutils (= 4.8.6.1), dh-autoreconf (= 19), dh-strip-nondeterminism (= 1.1.2-1), diffutils (= 1:3.7-3), dpkg (= 1.19.6), dpkg-dev (= 1.19.6), dwz (= 0.12-3), fdisk (= 2.33.1-0.1), file (= 1:5.35-4), findutils (= 4.6.0+git+20190209-2), g++ (= 4:8.3.0-1), g++-8 (= 8.3.0-7), gcc (= 4:8.3.0-1), gcc-8 (= 8.3.0-7), gcc-8-base (= 8.3.0-7), gettext (= 0.19.8.1-9), gettext-base (= 0.19.8.1-9), grep (= 3.3-1), groff-base (= 1.22.4-3), gzip (= 1.9-3), hostname (= 3.21), init-system-helpers (= 1.56+nmu1), intltool-debian (= 0.35.0+20060710.5), libacl1 (= 2.2.53-4), libarchive-zip-perl (= 1.64-1), libarchive13 (= 3.3.3-4), libasan5 (= 8.3.0-7), libatomic1 (= 8.3.0-7), libattr1 (= 1:2.4.48-4), libaudit-common (= 1:2.8.4-3), libaudit1 (= 1:2.8.4-3), libbamtools-dev (= 2.5.1+dfsg-3), libbamtools2.5.1 (= 2.5.1+dfsg-3), libbinutils (= 2.31.1-16), libblkid1 (= 2.33.1-0.1), libboost-atomic1.67-dev (= 1.67.0-13), 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libc6 (= 2.28-10), libc6-dev (= 2.28-10), libcap-ng0 (= 0.7.9-2), libcc1-0 (= 8.3.0-7), libcom-err2 (= 1.45.1-3), libcroco3 (= 0.6.12-3), libcurl4 (= 7.64.0-3), libdb5.3 (= 5.3.28+dfsg1-0.6), libdebconfclient0 (= 0.249), libdpkg-perl (= 1.19.6), libelf1 (= 0.176-1.1), libexpat1 (= 2.2.6-1), libfdisk1 (= 2.33.1-0.1), libffi6 (= 3.2.1-9), libfile-stripnondeterminism-perl (= 1.1.2-1), libgcc-8-dev (= 8.3.0-7), libgcc1 (= 1:8.3.0-7), libgcrypt20 (= 1.8.4-5), libgdbm-compat4 (= 1.18.1-4), libgdbm6 (= 1.18.1-4), libglib2.0-0 (= 2.58.3-1), libgmp10 (= 2:6.1.2+dfsg-4), libgnutls30 (= 3.6.7-3), libgomp1 (= 8.3.0-7), libgoogle-perftools-dev (= 2.7-1), libgoogle-perftools4 (= 2.7-1), libgpg-error0 (= 1.35-1), libgssapi-krb5-2 (= 1.17-2), libhogweed4 (= 3.4.1-1), libicu63 (= 63.1-6), libidn2-0 (= 2.0.5-1), libisl19 (= 0.20-2), libitm1 (= 8.3.0-7), libjsoncpp1 (= 1.7.4-3), libk5crypto3 (= 1.17-2), libkeyutils1 (= 1.6-6), libkrb5-3 (= 1.17-2), libkrb5support0 (= 1.17-2), libldap-2.4-2 (= 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libsmartcols1 (= 2.33.1-0.1), libssh2-1 (= 1.8.0-2.1), libssl1.1 (= 1.1.1b-2), libstdc++-8-dev (= 8.3.0-7), libstdc++6 (= 8.3.0-7), libsystemd0 (= 241-5), libtasn1-6 (= 4.13-3), libtcmalloc-minimal4 (= 2.7-1), libtinfo6 (= 6.1+20181013-2), libtool (= 2.4.6-10), libtsan0 (= 8.3.0-7), libubsan1 (= 8.3.0-7), libuchardet0 (= 0.0.6-3), libudev1 (= 241-5), libunistring2 (= 0.9.10-1), libuuid1 (= 2.33.1-0.1), libuv1 (= 1.24.1-1), libxml2 (= 2.9.4+dfsg1-7+b3), libzstd1 (= 1.3.8+dfsg-3), linux-libc-dev (= 4.19.37-3), login (= 1:4.5-1.1), lsb-base (= 10.2019051400), m4 (= 1.4.18-2), make (= 4.2.1-1.2), man-db (= 2.8.5-2), mawk (= 1.3.3-17+b3), ncurses-base (= 6.1+20181013-2), ncurses-bin (= 6.1+20181013-2), patch (= 2.7.6-3), perl (= 5.28.1-6), perl-base (= 5.28.1-6), perl-modules-5.28 (= 5.28.1-6), po-debconf (= 1.0.21), procps (= 2:3.3.15-2), protobuf-compiler (= 3.6.1.3-2), sed (= 4.7-1), sensible-utils (= 0.0.12), sysvinit-utils (= 2.93-8), tar (= 1.30+dfsg-6), util-linux (= 2.33.1-0.1), xz-utils (= 5.2.4-1), zlib1g (= 1:1.2.11.dfsg-1), zlib1g-dev (= 1:1.2.11.dfsg-1) Environment: DEB_BUILD_OPTIONS="nocheck parallel=1" DEB_BUILD_PROFILES="cross nocheck" LANG="en_US.UTF-8" LC_ALL="POSIX" SOURCE_DATE_EPOCH="1523203627" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ berkeley-express-dbgsym_1.5.2+dfsg-1_arm64.deb ---------------------------------------------- new Debian package, version 2.0. size 5107684 bytes: control archive=548 bytes. 417 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: berkeley-express-dbgsym Source: berkeley-express Version: 1.5.2+dfsg-1 Auto-Built-Package: debug-symbols Architecture: arm64 Maintainer: Debian Med Packaging Team Installed-Size: 5263 Depends: berkeley-express (= 1.5.2+dfsg-1) Section: debug Priority: optional Description: debug symbols for berkeley-express Build-Ids: 7e384b4808c8c8d298809920c035637cb2e663cd drwxr-xr-x root/root 0 2018-04-08 16:07 ./ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/lib/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/lib/debug/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/lib/debug/.build-id/7e/ -rw-r--r-- root/root 5378896 2018-04-08 16:07 ./usr/lib/debug/.build-id/7e/384b4808c8c8d298809920c035637cb2e663cd.debug drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/share/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/share/doc/ lrwxrwxrwx root/root 0 2018-04-08 16:07 ./usr/share/doc/berkeley-express-dbgsym -> berkeley-express berkeley-express_1.5.2+dfsg-1_arm64.deb --------------------------------------- new Debian package, version 2.0. size 228052 bytes: control archive=1924 bytes. 3141 bytes, 50 lines control 454 bytes, 6 lines md5sums Package: berkeley-express Version: 1.5.2+dfsg-1 Architecture: arm64 Maintainer: Debian Med Packaging Team Installed-Size: 841 Depends: libbamtools2.5.1, libboost-atomic1.67.0, libboost-chrono1.67.0, libboost-date-time1.67.0, libboost-filesystem1.67.0, libboost-program-options1.67.0, libboost-system1.67.0, libboost-thread1.67.0, libc6 (>= 2.27), libgcc1 (>= 1:4.5), libprotobuf17, libstdc++6 (>= 5.2) Recommends: med-config (>= 2.1) Section: science Priority: optional Homepage: http://bio.math.berkeley.edu/eXpress/index.html Description: Streaming quantification for high-throughput sequencing eXpress is a streaming tool for quantifying the abundances of a set of target sequences from sampled subsequences. Example applications include transcript-level RNA-Seq quantification, allele-specific/haplotype expression analysis (from RNA-Seq), transcription factor binding quantification in ChIP-Seq, and analysis of metagenomic data. It is based on an online-EM algorithm that results in space (memory) requirements proportional to the total size of the target sequences and time requirements that are proportional to the number of sampled fragments. Thus, in applications such as RNA-Seq, eXpress can accurately quantify much larger samples than other currently available tools greatly reducing computing infrastructure requirements. eXpress can be used to build lightweight high-throughput sequencing processing pipelines when coupled with a streaming aligner (such as Bowtie), as output can be piped directly into eXpress, effectively eliminating the need to store read alignments in memory or on disk. . In an analysis of the performance of eXpress for RNA-Seq data, it was observed that this efficiency does not come at a cost of accuracy. eXpress is more accurate than other available tools, even when limited to smaller datasets that do not require such efficiency. Moreover, like the Cufflinks program, eXpress can be used to estimate transcript abundances in multi-isoform genes. eXpress is also able to resolve multi-mappings of reads across gene families, and does not require a reference genome so that it can be used in conjunction with de novo assemblers such as Trinity, Oases, or Trans-ABySS. The underlying model is based on previously described probabilistic models developed for RNA-Seq but is applicable to other settings where target sequences are sampled, and includes parameters for fragment length distributions, errors in reads, and sequence-specific fragment bias. . eXpress can be used to resolve ambiguous mappings in other high-throughput sequencing based applications. The only required inputs to eXpress are a set of target sequences and a set of sequenced fragments multiply-aligned to them. While these target sequences will often be gene isoforms, they need not be. Haplotypes can be used as the reference for allele-specific expression analysis, binding regions for ChIP-Seq, or target genomes in metagenomics experiments. eXpress is useful in any analysis where reads multi-map to sequences that differ in abundance. drwxr-xr-x root/root 0 2018-04-08 16:07 ./ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/bin/ lrwxrwxrwx root/root 0 2018-04-08 16:07 ./usr/bin/berkeley-express -> ../lib/debian-med/bin/express drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/lib/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/lib/debian-med/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/lib/debian-med/bin/ -rwxr-xr-x root/root 838096 2018-04-08 16:07 ./usr/lib/debian-med/bin/express drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/share/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/share/doc/berkeley-express/ -rw-r--r-- root/root 987 2018-04-08 16:07 ./usr/share/doc/berkeley-express/README.Debian -rw-r--r-- root/root 1540 2018-04-02 15:44 ./usr/share/doc/berkeley-express/README.gz -rw-r--r-- root/root 917 2018-04-08 16:07 ./usr/share/doc/berkeley-express/changelog.Debian.gz -rw-r--r-- root/root 2819 2018-04-08 16:07 ./usr/share/doc/berkeley-express/copyright drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/share/man/ drwxr-xr-x root/root 0 2018-04-08 16:07 ./usr/share/man/man1/ -rw-r--r-- root/root 1192 2018-04-08 16:07 ./usr/share/man/man1/berkeley-express.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Profiles: cross nocheck Build Type: any Build-Space: 101812 Build-Time: 126 Distribution: unstable Foreign Architectures: arm64 Host Architecture: arm64 Install-Time: 31 Job: berkeley-express_1.5.2+dfsg-1 Lintian: pass Machine Architecture: amd64 Package: berkeley-express Package-Time: 168 Source-Version: 1.5.2+dfsg-1 Space: 101812 Status: successful Version: 1.5.2+dfsg-1 -------------------------------------------------------------------------------- Finished at 2019-05-30T17:27:36Z Build needed 00:02:48, 101812k disk space